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Delgado Sanz, Maria SoledadCorresponding AuthorDelgado, SoledadCorresponding AuthorIncipient functional SARS-CoV-2 diversification identified through neural network haplotype maps
Publicated to: Proceedings Of The National Academy Of Sciences Of The United States Of America. 121 (10): e2317851121- - 2024-03-05 121(10), DOI: 10.1073/pnas.2317851121
Authors: Delgado, S; Somovilla, P; Ferrer-Orta, C; Martínez- González, B; Vázquez-Monteagudo, S; Muñoz-Flores, J; Soria, ME; García-Crespo, C; de Avila, AI; Durán-Pastor, A; Gadea, I; López- Galíndez, C; Moran, F; Lorenzo-Redondo, R; Verdaguer, N; Perales, C; Domingo, E
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Abstract
Since its introduction in the human population, SARS-CoV-2 has evolved into multiple clades, but the events in its intrahost diversification are not well understood. Here, we compare three- dimensional (3D) self- organized neural haplotype maps (SOMs) of SARS-CoV-2 from thirty individual nasopharyngeal diagnostic samples obtained within a 19- day interval in Madrid (Spain), at the time of transition between clades 19 and 20. SOMs have been trained with the haplotype repertoire present in the mutant spectra of the nsp12- and spike (S)- coding regions. Each SOM consisted of a dominant neuron (displaying the maximum frequency), surrounded by a low- frequency neuron cloud. The sequence of the master (dominant) neuron was either identical to that of the reference Wuhan- Hu- 1 genome or differed from it at one nucleotide position. Six different deviant haplotype sequences were identified among the master neurons. Some of the substitutions in the neural clouds affected critical sites of the nsp12-nsp8-nsp7 polymerase complex and resulted in altered kinetics of RNA synthesis in an in vitro primer extension assay. Thus, the analysis has identified mutations that are relevant to modification of viral RNA synthesis, present in the mutant clouds of SARS-CoV-2 quasispecies. These mutations most likely occurred during intrahost diversification in several COVID-19 patients, during an initial stage of the pandemic, and within a brief time period.Keywords
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Bibliometric impact. Analysis of the contribution and dissemination channel
The work has been published in the journal Proceedings Of The National Academy Of Sciences Of The United States Of America due to its progression and the good impact it has achieved in recent years, according to the agency WoS (JCR), it has become a reference in its field. In the year of publication of the work, 2024 there are still no calculated indicators, but in 2023, it was in position 14/135, thus managing to position itself as a Q1 (Primer Cuartil), in the category Multidisciplinary Sciences. Notably, the journal is positioned above the 90th percentile.
Independientemente del impacto esperado determinado por el canal de difusión, es importante destacar el impacto real observado de la propia aportación.
Según las diferentes agencias de indexación, el número de citas acumuladas por esta publicación hasta la fecha 2025-12-05:
- WoS: 4
- Scopus: 9
Leadership analysis of institutional authors
This work has been carried out with international collaboration, specifically with researchers from: United States of America.
There is a significant leadership presence as some of the institution’s authors appear as the first or last signer, detailed as follows: First Author (DELGADO BERROCAL, SONIA) .
the authors responsible for correspondence tasks have been DELGADO SANZ, MARIA SOLEDAD and DELGADO BERROCAL, SONIA.